I'm Struggling to automate bulk downloads of ~36k+ metagenome assemblies from JGI's IMG database. The web interface works but isn't feasible at scale. What I've …

Hi there, I have managed to query the nr database with the BLAST REST API using code from their web_blast perl script, but i have …

Hello all, could you please help me, I can't download data from TCGA. ```r library(TCGAbiolinks) stadquery <- GDCquery(project = "TCGA-STAD", data.category = "Transcriptome Profiling", data.type …

I have a text file formatted like BED and I want to add the sequences as a column on to it. Bedtools getfasta should be …

Hi, I am trying to download IMG/JGI assembled metagenomes but I cannot find a way without creating an account which I can't (because I did …

I'm experimenting with the Ensembl API and trying to write a script where I can specify a gene (using the Ensembl ID) via a command …

We are planing to download ridiculously bulk amount of metagenomes dataset from MG-RAST (over 2000 metagenomes, raw data). I need around 5 TB of storage …

<p>Does anyone familiar with downloading data from MG-RAST? I have more than 100 metagenome ids that need to be downloaded in an efficient way. I …

<p>Hi, I need to retrieve genomes and metagenomes (assemblies or raw sequences) from <a href='http://genome.jgi.doe.gov/'>JGI DBs</a>. It is doable (not easy though) using HTML forms …

<p>Hello</p> <p>I was wondering if anyone could give me advice about how to get the watson snps from biomart. I have already emailed the biomart …